MolNFT v1 · #173113 · protein + DNA
Bovine papillomavirus E1 DNA helicase-replication fork complex
7APD · Replication protein E1: “Bovine papillomavirus E1 DNA helicase-replication fork complex”. Electron microscopy, 20 pockets (best druggability 0.85). MolNFT v1 #173113 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7APD
- Type
- protein + DNA
- Length
- 2,096 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Replication protein E1; DNA (40-mer); DNA (36-mer)
- EC
- 3.6.4.12
- UniProt
- C5IAS0, P03116
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 8 distinct chains · 43% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| G | Replication protein E1 (EC 3.6.4.12) | protein | 152 | 30% helix, 20% strand | C5IAS0 |
| B | Replication protein E1 (EC 3.6.4.12) | protein | 289 | 48% helix, 9% strand | P03116 |
| C, D, E | Replication protein E1 (EC 3.6.4.12) | protein | 287 | 45% helix, 9% strand | P03116 |
| F | Replication protein E1 (EC 3.6.4.12) | protein | 286 | 47% helix, 9% strand | P03116 |
| A | Replication protein E1 (EC 3.6.4.12) | protein | 284 | 44% helix, 7% strand | P03116 |
| H | Replication protein E1 (EC 3.6.4.12) | protein | 148 | 37% helix, 28% strand | C5IAS0 |
| P | DNA (40-mer) | dna | 40 | — | — |
| T | DNA (36-mer) | dna | 36 | — | — |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1120 | 0.85 | 0.86 | 148 | empty |
| 2 | 545 | 0.76 | 0.83 | 54 | empty |
| 3 | 462 | 0.76 | 0.84 | 70 | empty |
| 4 | 94 | 0.75 | 0.96 | 28 | empty |
| 5 | 377 | 0.71 | 0.83 | 39 | empty |
Interfaces
21 interfaces between chains.
- C–D · 1645 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 1549 Ų buried · 5 hydrogen bonds · protein-protein
- D–E · 1525 Ų buried · 5 hydrogen bonds · protein-protein
- E–F · 1415 Ų buried · 6 hydrogen bonds · protein-protein
- F–A · 1410 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 7APD · Bovine Papillomavirus E1 DNA helicase-replication fork complex · the same entry in another collection · chain G against G, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt C5IAS0
- Every structure of UniProt P03116
- Elsewhere: RCSB PDB 7APD · PDBe 7APD · UniProt C5IAS0 · UniProt P03116
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